|
| Status |
Public on Jul 13, 2024 |
| Title |
HUVEC, LVCON, H2O2 |
| Sample type |
SRA |
| |
|
| Source name |
HUVEC
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HUVEC
cell type: Human Umbilical Vein Endothelial Cells
genotype: WT
treatment: H2O2
|
| Treatment protocol |
Oxidative stress was induced by treatment of H2O2 (Sigma) for 24h,
|
| Growth protocol |
HUVECs were maintained in DMEM supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
CLC Genomics Workbench v 11.0.1
Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter- Quality limit: 0.05)
Trimmed sequence reads were mapped to GrCM38/mm10 using CLC genomic benchwork (parameters- mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.8 similarity fraction: 0.8)
Read count extraction and normalization were performed using CLC genomic benchwork
Assembly: mm10
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Jul 13, 2022 |
| Last update date |
Jul 13, 2024 |
| Contact name |
Nian Wang |
| E-mail(s) |
nianwang222@gmail.com
|
| Organization name |
Central south university
|
| Street address |
No.110 Xiangya Road
|
| City |
Changsha |
| State/province |
Hunan |
| ZIP/Postal code |
410078 |
| Country |
China |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE208105 |
Genes regulated by ZNF667 in the HUVECs induced by oxidative stress |
|
| Relations |
| BioSample |
SAMN29714432 |
| SRA |
SRX16175318 |
